Analysis of interatomic Contacts of Structural Units in PDB entry:
3VMF


Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
For CSU analysis of other PDB entry

This page provides analyses of contacts formed by:
For analysis of ligand-protein contacts, use: 3D structure can be seen in additional window with STING software for 3VMF entry

There are 2 chains in PDB entry 3VMF (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LYS 4ALA 430
B
 ARG 9SER 371
Residue contacts

1. List of contacts for up to 10 consecutive residues:
Chain ID from residue number to residue number


2. Detailed analyses of contacts for any single residue:
Residue number chain ID
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There are 28 helices in PDB entry 3VMF. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
18 30Right-handed alpha
Helix 2
2
A
34 48Right-handed alpha
Helix 3
3
A
49 54Right-handed 310
Helix 4
4
A
55 60Right-handed alpha
Helix 5
5
A
62 69Right-handed alpha
Helix 6
6
A
94 96Right-handed 310
Helix 7
7
A
97 107Right-handed alpha
Helix 8
8
A
120 126Right-handed alpha
Helix 9
9
A
130 142Right-handed alpha
Helix 10
10
A
162 180Right-handed alpha
Helix 11
11
A
183 187Right-handed 310
Helix 12
12
A
214 221Right-handed alpha
Helix 13
13
A
303 307Right-handed 310
Helix 14
14
A
404 407Right-handed 310
Helix 15
15
B
13 25Right-handed alpha
Helix 16
16
B
44 59Right-handed alpha
Helix 17
17
B
60 62Right-handed 310
Helix 18
18
B
64 84Right-handed alpha
Helix 19
19
B
130 138Right-handed alpha
Helix 20
20
B
194 216Right-handed alpha
Helix 21
21
B
229 237Right-handed alpha
Helix 22
22
B
241 246Right-handed alpha
Helix 23
23
B
258 270Right-handed alpha
Helix 24
24
B
273 275Right-handed 310
Helix 25
25
B
276 295Right-handed alpha
Helix 26
26
B
303 313Right-handed alpha
Helix 27
27
B
327 339Right-handed alpha
Helix 28
28
B
351 360Right-handed alpha
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There are 9 sheets in PDB entry 3VMF. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I,

There are 6 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
75 80first strand
Strand 2
A
85 90anti-parallel
Strand 3
A
6 12parallel
Strand 4
A
110 116parallel
Strand 5
A
146 152parallel
Strand 6
A
189 191parallel
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There are 7 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
235 236first strand
Strand 2
A
312 315anti-parallel
Strand 3
A
264 268anti-parallel
Strand 4
A
272 281anti-parallel
Strand 5
A
294 300anti-parallel
Strand 6
A
247 253anti-parallel
Strand 7
A
239 243anti-parallel
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There are 5 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
235 236first strand
Strand 2
A
312 315anti-parallel
Strand 3
A
264 268anti-parallel
Strand 4
A
272 281anti-parallel
Strand 5
A
284 286anti-parallel
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There are 2 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
259 260first strand
Strand 2
A
288 289anti-parallel
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There are 7 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
372 375first strand
Strand 2
A
352 365anti-parallel
Strand 3
A
346 349anti-parallel
Strand 4
A
409 414anti-parallel
Strand 5
A
417 429anti-parallel
Strand 6
A
322 332anti-parallel
Strand 7
A
396 397anti-parallel
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There are 5 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
372 375first strand
Strand 2
A
352 365anti-parallel
Strand 3
A
385 392anti-parallel
Strand 4
A
322 332anti-parallel
Strand 5
A
396 397anti-parallel
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There are 4 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
106 111first strand
Strand 2
B
93 99anti-parallel
Strand 3
B
34 39anti-parallel
Strand 4
B
121 125anti-parallel
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There are 5 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
162 170first strand
Strand 2
B
152 159anti-parallel
Strand 3
B
142 148anti-parallel
Strand 4
B
219 226parallel
Strand 5
B
253 254parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
300 302first strand
Strand 2
B
362 366anti-parallel
Strand 3
B
316 322anti-parallel
Strand 4
B
341 345parallel
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